Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 4 | 1 | 4 | 5.74 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| Query ID | Begin | End | ARO name | ARO accession | CARD name | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| PHCCMDOK_88 | 89383 | 90228 | Erm(34) | ARO:3000600 | Erm(34) | 98.58 | 100.00 | AY234334.1 |
| PHCCMDOK_18 | 31882 | 32652 | ANT(4')-Ib | ARO:3003905 | ANT(4')-Ib | 94.14 | 100.00 | EF540343.1 |
| PHCCMDOK_32 | 30906 | 31958 | clbC | ARO:3002816 | clbC | 97.14 | 100.00 | AP006627.1 |
RGI v6.0.3 (Database: CARD Variants v4.0.2, Nov. 2023 release)
ResFinder
| Query ID | Begin | End | Resistance gene | Phenotype | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|
| PHCCMDOK_88 | 89383 | 90228 | erm(34) | Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S | 97.87 | 100.00 | AY234334 |
| PHCCMDOK_18 | 31882 | 32652 | ant(4')-Ib | Amikacin, Tobramycin, Isepamicin, Dibekacin | 94.16 | 100.00 | AJ506108 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| PHCCMDOK_88 | 89383 | 90225 | erm(34) | 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(34) | BLASTX | 98.58 | 100.00 | WP_063844504.1 |
| PHCCMDOK_32 | 30909 | 31958 | clbB | 23S rRNA (adenine(2503)-C(8))-methyltransferase ClbB | BLASTX | 97.14 | 100.00 | WP_011245929.1 |
| PHCCMDOK_18 | 28566 | 29468 | blaBCL | BCL family class A beta-lactamase | BLASTX | 96.68 | 100.00 | WP_065825670.1 |
| PHCCMDOK_18 | 31885 | 32652 | aadD2 | aminoglycoside O-nucleotidyltransferase ANT(4')-Ib | BLASTX | 94.14 | 100.00 | WP_035202393.1 |
AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)
Virulence factors
Virulence Factor Database (VFDB)
| Query ID | qstart | qend | Gene name | e-value | VF name | VF category | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|---|
| PHCCMDOK_41 | 23071 | 23721 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 96.77 | 100.00 | WP_011247375 |
BLASTN v2.16.0 (Database: VFDB, Dec. 2024 release)
VirulenceFinder
| Query ID | Begin | End | Database | Virulence factor | Protein function | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
VirulenceFinder v2.0. 4 (Database: virulencefinder_db, Feb . 2024 release)
Pathogenic genes
PHI-base
| Query ID | qstart | qend | Gene name | e-value | Function | Identity | Coverage | Gene ID |
|---|---|---|---|---|---|---|---|---|
| PHCCMDOK_14 | 32632 | 33774 | tufA | 0.0 | elongation factor Tu | 87.14 | 96.19 | AHM69299 |
| PHCCMDOK_37 | 16730 | 16972 | SpoVG | 1.07e-37 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| PHCCMDOK_61 | 1679 | 1876 | CspA | 3.36e-32 | cold shock protein | 87.88 | 100.00 | CAA62903 |
| PHCCMDOK_8 | 75876 | 75688 | CspB | 1.22e-25 | cold shock protein | 82.54 | 95.45 | CAD00094 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| PHCCMDOK_1 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_2 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_3 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_4 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_5 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_6 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_7 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_8 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_9 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_10 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_11 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_12 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_13 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_14 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_15 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_16 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_17 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_18 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_19 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_20 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_21 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_22 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_23 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_24 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_25 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_26 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_27 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_28 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_29 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_30 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_31 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_32 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_33 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_34 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_35 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_36 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_37 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_38 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_39 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_40 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_41 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_42 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_43 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_44 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_45 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_46 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_47 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_48 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_49 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_50 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_51 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_52 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_53 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_54 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_55 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_56 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_57 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_58 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_59 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_60 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_61 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_62 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_63 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_64 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_65 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_66 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_69 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_70 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_71 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_72 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_73 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_74 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_76 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_77 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_79 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_81 | 1.0 | 0.0 | 1.0 |
| PHCCMDOK_88 | 0.0 | 1.0 | 0.0 |
| PHCCMDOK_93 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| PHCCMDOK_17 | 8093 | 23576 | False | Siphoviridae | VOG4585, VOG4731, VOG5583, VOG7643, VOG0189, VOG0025, VOG4551, VOG1563, VOG0052, VOG7255, VOG5753, VOG10937, VOG8252, VOG0026, VOG10904, VOG0026 |
| PHCCMDOK_17 | 39263 | 50814 | False | Siphoviridae | VOG5023, VOG5012, VOG4555, VOG3676, VOG5270, VOG4564, VOG0697, VOG0799, VOG2621, VOG0725 |
| PHCCMDOK_30 | 711 | 35211 | False | Siphoviridae | VOG3920, VOG3607, VOG4556, VOG4568, VOG4553, VOG7168, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG4910, VOG0801, VOG4660, VOG5384, VOG3390, VOG4705, VOG4619, VOG0641, VOG8236, VOG0018, VOG6116, VOG0866, VOG0047, VOG4602, VOG8520, VOG5353, VOG4552, VOG0468, VOG6414, VOG6931, VOG0535, VOG1936 |
Phigaro v2.4.0 (Database: Jan. 2024 release)